Rv1909c Transcriptional regulator, FUR family

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv1909c furA Transcriptional regulator, FUR family CDS 2156149 2156601 - 453 150 TRUE

Rv1909c (Transcriptional regulator, FUR family) is predicted to be co-regulated in modules bicluster_0067 with residual 0.54 and bicluster_0374 with residual 0.50.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 180.00 and 34.00 for bicluster_0067 and 0.01 and 3,200.00 for bicluster_0374 respectively.

These modules are enriched for following go terms: .

This gene is found to be for growth on cholesterol.

Mutant available?:

BASS Score New Primary UTR Primary TSS Re-Annotated Start Tuberculist Annotated Start
-0.357 9 2156592 2156583 2156592
Displaying 1 - 1 of 1
Gene Target Differential Expression Distance Expression pvalue Type
No results were found
Displaying 1 - 1 of 1
ChipSeq TF Differential Expression Distance Expression pvalue Type
Transcriptional regulator, TetR family
No -12 -0.23 0.767478 Primary.TSS
Motif 1 Motif 2 Residual
bicluster_0067
e.value: 
180
Motif Bicluster: 
e.value: 
34
Motif Bicluster: 
0.54
bicluster_0374
e.value: 
0.013
Motif Bicluster: 
e.value: 
3200
Motif Bicluster: 
0.50
Product (LegacyBRC) Product (RefSeq)
Ferric uptake regulation protein ferric uptake regulation protein furA (fur)
Operon # Operon
1251 - -
PATRIC Locus Tag Enzyme Name PATRIC Pathways Transcriptomics

PATRIC

Not assigned Not assigned
Locus Tuberculist Genome View

Tuberculist

Quickview
Locus Tag KEGG Pathways

KEGG

not assigned to any KEGG Pathway.
BioCyc Gene Page Cellular Overview Map
Link to STRING STRING Network

STRING

GI Number Protein ID Blast Conserved Domains
15609046 NP_216425.1 Run
GO:0003700

sequence-specific DNA binding transcription factor activity

sequence-specific DNA binding transcription factor activity

Details: 
Interacting selectively and non-covalently with a specific DNA sequence in order to modulate transcription. The transcription factor may or may not also interact selectively with a protein or macromolecular complex.
GO Category: 
molecular_function
17
Total items in this category:  
GO:0006979

response to oxidative stress

response to oxidative stress

Details: 
Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of oxidative stress, a state often resulting from exposure to high levels of reactive oxygen species, e.g. superoxide anions, hydrogen peroxide (H2O2), and hydroxyl radicals.
GO Category: 
biological_process
13
Total items in this category:  
GO:0010039

response to iron ion

response to iron ion

Details: 
Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an iron ion stimulus.
GO Category: 
biological_process
8
Total items in this category:  
GO:0016564

transcription repressor activity

transcription repressor activity

Details: 
OBSOLETE. Any transcription regulator activity that prevents or downregulates transcription.
GO Category: 
molecular_function
2
Total items in this category:  
Description:Expression data from transcription factor over expression experiments. TFOE are matched to the ChIP-seq experiment done simultaneously. This dataset is described in Rustad et al. 2014, Genome Biology.
BioProject Accession GEO Series References Repository Sample Method Sample Type
PRJNA254351 GSM1426738 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426739 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426740 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426741 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426742 GSE59086 25232098 GEO Tiling Array RNA
Experiment UCSC Genome Browser
Rv1909c_B130 UCSC Browser Tracks
Quantitative Proteomics Data
t-test p-value Cholesterol/Glycerol Ratio
0.750000 1.57

How essentiality calculations were done?

The relative representation of each mutant was determined by calculating the fold change (sequence reads/insertion in cholesterol divided by sequence reads/insertion in glycerol) for each gene. Statistical significance was determined by t-test. Each insertion site in each replicate sample was treated as a separate data point. The hyperbola used for defining genes specifically required for growth in cholesterol was defined by the formula, y = 3.8/x+0.7. Genes above this line are annotated as required for growth on cholesterol.

TRIP log2 fold abundance change

reports the log2 abundance fold change of each TFI strain, relative to no induction, in absence or presence of drug, averaged across experimental replicates. Also reported are the accompanying z-scores and two-sided t-test p-values for each TFI strain under each condition. Please refer to Ma et al., 2020, Nature Microbiology for more information.

p-value Untreated: 0.00000010474
p-value INH: 0.0000122502
Displaying 1 - 17 of 17
Condition Count Day Doublings Fitness U.I Plots
D0U 27 0 0.00 10.56 U
D3I 3 3 3.83 10.75 I
D3U 3 3 3.83 10.53 U
D5I 9 5 6.00 11.09 I
D5U 17 5 6.00 10.86 U
D7I 18 7 8.14 10.33 I
D7U 19 7 8.14 9.77 U
D14I 4 14 15.63 12.21 I
D14U 4 14 15.63 10.61 U
D17I 3 17 19.15 12.42 I
D17U 3 17 19.15 10.44 U
D21I 4 21 23.23 12.11 I
D21U 4 21 23.23 10.06 U
D24I 3 24 26.60 11.86 I
D24U 3 24 26.60 9.26 U
D28I 4 28 30.61 11.74 I
D28U 4 28 30.61 8.97 U